I certainly agree that allowing writers leeway and creative control is important. I just think that the particular combinations that brought us STID and Trek didn't work out too great because the director's vision (or the demands of the studio) were such that they didn't really care about serving as a counter balance to the writers. Clearly there are situations where writers are run over rough shod, perhaps more often than not, but it seems to me there's quite a few producer-cum-writer-cum-director combinations in various configurations taking over major franchises that I think how studios choose to staff a franchise is as important as whether or not they give enough creative control.
I feel like, for example, someone with a bit of clout who could've said "No" to how Man of Steel would throw a pretty big spanner into the on-screen portrayal of Superman would've been helpful.
But again, in both cases you're assuming that the writers are solely responsible for the parts you don't like, and I don't understand why you jump to that conclusion. As I've been trying to explain, the writers are not the decision-makers in feature films. True, Abrams has the advantage of being a writer who's also a director, but
as the director, he's the one who has the final say and the ability to veto any of the writers' decisions.
Indeed, we know that a lot of the more plausible science content that Orci wanted to work into the film (judging from his online comments and interviews) was glossed over or removed in production and editing, which would've been Abrams's purview. We know that Orci didn't want Khan to be in STID but the other producers (mainly Lindelof) overruled him. It's still the director and producers who have the decision-making power, even though they also happen to be writers in this case. But the various different writers on the film are not a single monolithic bloc with a single set of ideas; like any collaborators, they come at it from different perspectives and disagree with each other. So you're wrong to talk as though there's some single entity called "the writers" that was running around unchecked.
As for
Man of Steel, my whole point in bringing it into the discussion is that if multiple unrelated productions with different writing staffs are simultaneously ending with big city-destruction climaxes, that indicates that the impetus to do that kind of climax comes from somewhere higher up, or from some broader systemic process within the industry as a whole, rather than being something that the individual films' writers can be blamed for initiating. The fact is, there were plenty of people in a position to say "No" to the makers of MoS, but they didn't
want to say "No" to the disaster porn, because that's what the studios want. They want action movies to have progressively bigger, more expensive, more cataclysmic climaxes so that they keep topping each other and keep pace with an audience that's getting ever more jaded by the orgies of destruction in earlier movies.
Remember: even if the director, producer, and writer are all on the same page, that doesn't mean they have carte blanche, because they still have to answer to the studio and the financial backers and the marketing people. There's no way in hell that the makers of movies this expensive are going to be left unsupervised and unregulated -- there's just too much at stake.